Université Paris-Saclay, INRAE, UVSQ, VIM, Jouy-en-Josas, France.
Immunology Laboratory, Research Center for Nanomaterials and Biomedicine (CINBIO), Universidade de Vigo, Vigo, Spain.
Front Immunol. 2023 Aug 15;14:1238321. doi: 10.3389/fimmu.2023.1238321. eCollection 2023.
T-cell mediated immunity relies on a vast array of antigen specific T cell receptors (TR). Characterizing the structure of TR loci is essential to study the diversity and composition of T cell responses in vertebrate species. The lack of good-quality genome assemblies, and the difficulty to perform a reliably mapping of multiple highly similar TR sequences, have hindered the study of these loci in non-model organisms. High-quality genome assemblies are now available for the two main genera of Salmonids, and . We present here a full description and annotation of the TRB loci located on chromosomes 19 and 25 of rainbow trout (). To get insight about variations of the structure and composition of TRB locus across salmonids, we compared rainbow trout TRB loci with other salmonid species and confirmed that the basic structure of salmonid TRB locus is a double set of two TRBV-D-J-C loci in opposite orientation on two different chromosomes. Our data shed light on the evolution of TRB loci in Salmonids after their whole genome duplication (WGD). We established a coherent nomenclature of salmonid TRB loci based on comprehensive annotation. Our work provides a fundamental basis for monitoring salmonid T cell responses by TRB repertoire sequencing.
T 细胞介导的免疫依赖于大量的抗原特异性 T 细胞受体 (TR)。对 TR 基因座结构的特征分析对于研究脊椎动物物种中 T 细胞反应的多样性和组成至关重要。缺乏高质量的基因组组装，以及难以对多个高度相似的 TR 序列进行可靠的映射，这阻碍了非模式生物中这些基因座的研究。现在已经有了两种主要的鲑鱼属， 和 的高质量基因组组装。我们在这里全面描述和注释了位于虹鳟鱼第 19 号和第 25 号染色体上的 TRB 基因座。为了深入了解 TRB 基因座在鲑鱼中的结构和组成的变化，我们将虹鳟鱼的 TRB 基因座与其他鲑鱼物种进行了比较，并证实了鲑鱼 TRB 基因座的基本结构是两个不同染色体上的两个 TRBV-D-J-C 基因座的双套反向排列。我们的数据揭示了鲑鱼在经历全基因组复制 (WGD) 后 TRB 基因座的进化。我们基于全面注释建立了一个连贯的鲑鱼 TRB 基因座命名法。我们的工作为通过 TRB 库测序监测鲑鱼 T 细胞反应提供了一个基本的基础。
